NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0208673_1008350

Scaffold Ga0208673_1008350


Overview

Basic Information
Taxon OID3300027192 Open in IMG/M
Scaffold IDGa0208673_1008350 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Ebb tide non-ETM metaG S.715 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1904
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005586Metagenome / Metatranscriptome395Y
F035307Metagenome172Y
F073184Metagenome / Metatranscriptome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0208673_10083501F005586GGAGGMPTDYNYDVMLDLRKHLWSQLKSNSLFQASDYYSDNLGEELIPIIPVQQQAEMNQFLSGKKHIVYDKIGMSYEDNWVICCEQILFTIYSTDISEINQIRNLMTDLYRRMDESAR
Ga0208673_10083502F035307GGAGLDTSAVLVKAASGLQKTMGGTRGAVLQDSTVAQISAAIYYQASVISKVTTNKQFQSKFQSILFNQIKKDFGNYIDSQSRTNPKTLHHVYEWKKVGTPSARLFDLKVAGTDGLSFKISSEFKPSKSMVPTNFGKARHVFTNKASVMEAGMPLAIKPKNAERLVFEMDGVVIRMPKGMPVTVKKPGGGKATGRYKIAYAQFFTGNLVNLSIKNSKFQQIFNSSITKAMKLPVDIKKVKYSFSPNTVNMQAGAALSAAFGGSDANGL
Ga0208673_10083504F073184N/AESGFGIRVNKATMLDNTVYVANGMVPPSINYSTGGAFGKDSVYKVAGRYGWERVPDEVELAAIELMKDYFSKDKVWRDKYIKNISTFDWKFEYNAETYRGTGNVYVDQILLPYIINQMVV
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